mtDNA GATK filters

[gemmabv]

Looks like filters are not correct. In case AS5845 case summarizer reports 0 variants as reported and I get 4.

/scratch/production/gbullich/NAGEN/casesummarizer/NAGENPEDIATRICS_90/NP245

[lmatalonga]

Hi @gemmabv , Sorry this was an issue in the SOP - AF mitomap < 0.5 (columna Z) and not 5. Best, Leslie

[rtonda]

Hi, I've checked in the code and the threshold used is <=0.5